Nanopublications

@prefix this: <https://w3id.org/np/RA4TkcJzz1U1F2f3Mh29t1N0eYXyPFltTxbk9t0Y_v-AU> .
@prefix sub: <https://w3id.org/np/RA4TkcJzz1U1F2f3Mh29t1N0eYXyPFltTxbk9t0Y_v-AU/> .
@prefix schema: <http://schema.org/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix edam: <http://edamontology.org/> .
@prefix pav: <http://purl.org/pav/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix orcid: <https://orcid.org/> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix sio: <http://semanticscience.org/resource/> .
@prefix bibo: <http://purl.org/ontology/bibo/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix foaf: <http://xmlns.com/foaf/0.1/> .

sub:Head {
  this: np:hasAssertion sub:assertion ;
    np:hasProvenance sub:provenance ;
    np:hasPublicationInfo sub:pubinfo ;
    a np:Nanopublication .
}

sub:assertion {
  <http://purl.org/coloc-seq/kinetics-model> schema:formula "f(A) = (1 - P0) * exp(-k'i * A) + P0"@en ;
    schema:name "CoLoC-seq Kinetics Model"@en ;
    sio:SIO_000211 "P0"@en , "k'i"@en ;
    a schema:Thing ;
    rdfs:comment "P0 represents protected RNA pool proportion; k'i represents digestion rate constant"@en .
  <http://purl.org/coloc-seq/method> edam:has_function edam:operation_3680 ;
    schema:applicationArea "Extracellular vesicle characterization"@en , "Mitochondrial transcriptomics"@en , "Organelle RNA localisation"@en ;
    schema:description "Controlled Level of Contamination coupled to deep sequencing - a novel subcellular transcriptomics approach"@en ;
    schema:name "CoLoC-seq"@en ;
    sio:SIO_000135 <http://purl.org/coloc-seq/kinetics-model> , <http://purl.org/coloc-seq/mock-coloc-experiment> ;
    a edam:data_0957 , schema:Thing ;
    rdfs:comment "Leverages classical enzymatic kinetics to track depletion dynamics of transcripts using RNase gradients"@en .
  <http://purl.org/coloc-seq/mock-coloc-experiment> schema:description "Control experiment with detergent-permeabilized membranes to detect false positives"@en ;
    schema:name "Mock CoLoC-seq"@en ;
    a schema:Thing ;
    rdfs:comment "Distinguishes genuine protection from intrinsic RNase resistance"@en .
  this: schema:about <https://doi.org/10.1093/nar/gkac1205> ;
    schema:text "CoLoC-seq is a novel subcellular transcriptomics approach that uses enzymatic kinetics to distinguish genuine organellar resident RNAs from surface-attached contaminants."@en ;
    a <https://w3id.org/np/RA4TkcJzz1U1F2f3Mh29t1N0eYXyPFltTxbk9t0Y_v-AU/o/ntemplate/AIDA-Sentence> ;
    rdfs:seeAlso edam:operation_3680 .
}

sub:provenance {
  <https://doi.org/10.1093/nar/gkac1205> bibo:doi "10.1093/nar/gkac1205" ;
    schema:datePublished "2023"^^xsd:gYear ;
    schema:isPartOf sub:__1 ;
    schema:name "CoLoC-seq probes the global topology of organelle transcriptomes"@en ;
    a bibo:AcademicArticle , schema:ScholarlyArticle .
  sub:__1 schema:issn "0305-1048" ;
    schema:name "Nucleic Acids Research"@en ;
    a schema:Periodical .
  sub:assertion prov:wasAttributedTo orcid:0000-0001-8763-6703 , orcid:0000-0002-1481-2996 , orcid:0000-0002-9142-7979 ;
    prov:wasDerivedFrom <https://doi.org/10.1093/nar/gkac1205> .
}

sub:pubinfo {
  orcid:0009-0005-7752-8203 foaf:name "Tiado Kollender" .
  this: dct:created "2026-01-11T00:00:00Z"^^xsd:dateTime ;
    dct:license <https://creativecommons.org/publicdomain/zero/1.0/> ;
    npx:signedBy orcid:0009-0005-7752-8203 ;
    npx:wasCreatedFromPubinfoTemplate <https://w3id.org/np/RA0J4vUn_dekg-U1kK3AOEt02p9mT2WO03uGxLDec1jLw> , <https://w3id.org/np/RAukAcWHRDlkqxk7H2XNSegc1WnHI569INvNr-xdptDGI> ;
    pav:createdBy orcid:0009-0005-7752-8203 ;
    a npx:ExampleNanopub ;
    rdfs:comment "AIDA-based assertion about CoLoC-seq as a novel subcellular transcriptomics approach"@en ;
    rdfs:label "Nanopublication: CoLoC-seq method for subcellular RNA localisation"@en ;
    prov:wasAttributedTo orcid:0009-0005-7752-8203 .
  sub:sig npx:hasAlgorithm "RSA" ;
    npx:hasPublicKey "MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEAoSR/rqhnkTPQO8u4l2JQAemJo5cN83rT54nA5NXHUqaeu26bEjT/rsX1PCVBhhJ3cV2uu4wjI0NfcVaKPKmODSf6p579tdOykOnjbWLbxxPMe5DC5eV1ThMHsFsNU/6vCYIfS00E7wre7fnFYz7FAG7v1MZEyWeSXsHgk9jHoqQQDPqup5PHReKp1dd6J0Nht/OfSYnUancKAgIFyPhkTlThsLK5xSNyNEgiTR7pwkP5pGq2AnD6bPw4G3kiPnIpIGZNsaeIOvhn64gwbrtoJVdoun/namw6FQ7StEC5km/0evaBZc4qIextwO/s32Wru77ukblJ0Xi/YzbC0iLuIQIDAQAB" ;
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    npx:hasSignatureTarget this: .
}